iDIA-QC: AI-empowered data-independent acquisition mass spectrometry-based quality control by Huanhuan Gao, Yi Zhu, Dongxue Wang, Zongxiang Nie, He Wang, Guibin Wang, Shuang Liang, Yuting Xie, Yingying Sun, Wenhao Jiang, Zhen Dong, Liqin Qian, Xufei Wang, Mengdi Liang, Min Chen, Houqi Fang, Qiufang Zeng, Jiao Tian, Zeyu Sun, Juan Xue, Shan Li, Chen Chen, Xiang Liu, Xiaolei Lyu, Zhenchang Guo, Yingzi Qi, Ruoyu Wu, Xiaoxian Du, Tingde Tong, Fengchun Kong, Liming Han, Minghui Wang, Yang Zhao, Xinhua Dai, Fuchu He, Tiannan Guo

“…Abstract Quality control (QC) in mass spectrometry (MS)-based proteomics is mainly based on data-dependent acquisition (DDA) analysis of standard samples. Here, we collect 2754 files acquired by data independent acquisition (DIA) and paired 2638 DDA files from mouse liver digests using 21 mass spectrometers across nine laboratories over 31 months. …”
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Mapping hippocampal glutamate in healthy aging with in vivo glutamate-weighted CEST (GluCEST) imaging by Maggie K. Pecsok, Heather Robinson, Ally Atkins, Monica E. Calkins, Monica E. Calkins, Mark A. Elliott, Arianna Mordy, Jacquelyn Stifelman, Ruben C. Gur, Ruben C. Gur, Paul J. Moberg, Ravi Prakash Reddy Nanga, Kosha Ruparel, Kosha Ruparel, Russell T. Shinohara, David A. Wolk, Ravinder Reddy, David R. Roalf, David R. Roalf

“…IntroductionHippocampal glutamate (Glu) dysfunction is a pertinent indicator of neurodegeneration, yet mapping typical age-related changes in Glu has been challenging. Here, we use a 7T MRI approach, Glutamate Chemical Exchange Saturation Transfer (GluCEST), to measure bilateral hippocampal Glu in healthy old (HOA) and young (HYA) adults.MethodsBilateral hippocampal GluCEST data was acquired from 27 HOA and 22 HYA using 7T MRI. …”
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Interventions by Cardiovascular Drugs Against Aircraft Noise-Induced Cardiovascular Oxidative Stress and Damage by Marin Kuntić, Ivana Kuntić, Jiayin Zheng, Leonardo Nardi, Matthias Oelze, Arijan Valar, Dominika Mihaliková, Lea Strohm, Henning Ubbens, Qi Tang, Liyu Zhang, Guilherme Horta, Paul Stamm, Omar Hahad, Dilja Krueger-Burg, Huige Li, Sebastian Steven, Adrian Gericke, Michael J. Schmeisser, Thomas Münzel, Andreas Daiber

“…This results in the annual loss of 1.6 million healthy life years. Here, we investigated the protective effects of cardiovascular drug interventions against aircraft noise-mediated cardiovascular complications such as elevated oxidative stress or endothelial dysfunction. …”
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Effect of Dam Emplacement and Water Level Changes on Sublacustrine Geomorphology and Recent Sedimentation in Jackson Lake, Grand Teton National Park (Wyoming, United States) by Michael M. McGlue, John R. Dilworth, Hillary L. Johnson, Samuel J. Whitehead, J. Ryan Thigpen, Kevin M. Yeager, Edward W. Woolery, Summer J. Brown, Sarah E. Johnson, Cooper S. Cearley, Gillian M. Clark, T. Spencer Dixon, Ryan C. Goldsby, Autumn L. Helfrich, Bailee N. Hodelka, Edward L. Lo, Leandro Domingos-Luz, Nicholas E. Powell, Giliane G. Rasbold, William R. Swanger

“…Dam installation on a deep hydrologically open lake provides the experimental framework necessary to study the influence of outlet engineering and changing base levels on limnogeological processes. Here, high-resolution seismic reflection profiles, sediment cores, and historical water level elevation datasets were employed to assess the recent depositional history of Jackson Lake, a dammed glacial lake located adjacent to the Teton fault in western Wyoming (USA). …”
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Macrophages facilitate tumor cell PD‐L1 expression via an IL‐1β‐centered loop to attenuate immune checkpoint blockade by Cheng Xu, Yu Xia, Bai‐Wei Zhang, Emmanuel Kwateng Drokow, Hua‐Yi Li, Sen Xu, Zhen Wang, Si‐Yuan Wang, Ping Jin, Tian Fang, Xiao‐Ming Xiong, Pu Huang, Ning Jin, Jia‐Hong Tan, Qing Zhong, Yu‐Xin Chen, Qi Zhang, Yong Fang, Fei Ye, Qing‐Lei Gao

“…However, the interplay between TAMs and tumor cells responsible for enhancing immune evasion remains insufficiently understood. Here, we revealed that interleukin (IL)‐1β was among the most abundant cytokines within the in vitro tumor‐macrophage coculture system, and enhanced IL‐1β expression was associated with impaired cytotoxicity of CD8+ T cells in human ovarian cancer, indicating the possibility that IL‐1β mediated immunosuppression during tumor‐TAMs crosstalk. …”
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Synaptotagmin-1 attenuates myocardial programmed necrosis and ischemia/reperfusion injury through the mitochondrial pathway by Teng Sun, Jialei Li, Shuang Wang, Yu Han, Xiangyu Tao, Min Yuan, Zhijie Jing, Ting Liu, Yuehong Qi, Siqi Liu, Yanlin Feng, Jiasong Chang, Lan Zhou, Lijuan Gao, Jianyun Shi, Ruihong Ning, Jimin Cao

“…However, whether Syt1 functions in the pathogenesis of cardiac disorders and what is the molecular etiology have not yet been clarified. We showed here that Syt1 expression was significantly down-regulated in mice I/R injured heart tissues, H2O2-challenged cardiomyocytes and hypoxia/reoxygenation (H/R)-damaged cardiomyocytes. …”
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Enzyme-responsive vitamin D-based micelles for paclitaxel-controlled delivery and synergistic pancreatic cancer therapy by Diana Peixoto, João M. Ravasco, Barbara Blanco-Fernandez, Francisco Veiga, Angel Concheiro, João Conde, Ana Cláudia Paiva-Santos, Carmen Alvarez-Lorenzo

“…The findings reported here indicate that VD3S-PEG micelles may have a promising role in PDAC therapy, since VD3 could act not only as a hydrophobic core of the micelles but also as a therapeutic agent that provides synergetic therapeutic effects with the encapsulated PTX.…”
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Ethyl Lactate Ameliorates Hepatic Steatosis and Acute‐on‐Chronic Liver Injury in Alcohol‐Associated Liver Disease by Inducing Fibroblast Growth Factor 21 by Yang Jiang, Shuang Wei, Shiming Shen, Yuxiao Liu, Weitong Su, Dong Ding, Zengpeng Zheng, Haokai Yu, Tingting Zhang, Qiuli Yang, Jiuxiang Zhao, Yi Shen, Xia Fang, Liangcai Lin, Dongguang Xiao, Aoyuan Cui, Qin Wan, Yadong Zhang, Yu Li, Cuiying Zhang

“…Moreover, little is known about whether and how nonethanol ingredients in alcoholic beverages regulate the pathogenesis of ALD. Here the discovery of a small molecule that activates the production and secretion of fibroblast growth factor 21 (FGF21) is reported. …”
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Results from an Australopithecus africanus dental enamel fragment confirm the potential of palaeoproteomics for South African Plio-Pleistocene fossil sites by Palesa P. Madupe, Fazeelah Munir, Marc Dickinson, Alberto J. Taurozzi, Meaghan Mackie, Mirriam Tawane, Catherine Mollereau, Nomawethu Hlazo, Kirsty Penkman, Lauren Schroeder, Clément Zanolli, Jesper V. Olsen, Rebecca R. Ackermann, Enrico Cappellini

“…Palaeoproteomics can help improve our understanding of taxonomic variation, as demonstrated by the recently generated proteome of Paranthropus specimens from Swartkrans. Here, we demonstrate protein preservation for an A. africanus specimen from Sterkfontein Member 4, Sts 63, using minimally invasive analysis, and identify it as belonging to a male individual. …”
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Targeted allele-specific FGFR2 knockdown via human recombinant ferritin nanoparticles for personalized treatment of Crouzon syndrome by Federica Tiberio, Martina Salvati, Luca Polito, Giada Tisci, Alessia Vita, Ornella Parolini, Luca Massimi, Lorena Di Pietro, Pierpaolo Ceci, Gianpiero Tamburrini, Alessandro Arcovito, Elisabetta Falvo, Wanda Lattanzi

“…We demonstrated the ability of these NPs to deliver and release siRNAs within target cells, sustaining their inhibitory and AS effects. Here, we show that ferritin-mediated AS FGFR2 knockdown by siRNA represents a suitable strategy to dampen FGFR2 overactivation in patients’ cells.…”
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Multiparametric MRI along with machine learning predicts prognosis and treatment response in pediatric low-grade glioma by Anahita Fathi Kazerooni, Adam Kraya, Komal S. Rathi, Meen Chul Kim, Arastoo Vossough, Nastaran Khalili, Ariana M. Familiar, Deep Gandhi, Neda Khalili, Varun Kesherwani, Debanjan Haldar, Hannah Anderson, Run Jin, Aria Mahtabfar, Sina Bagheri, Yiran Guo, Qi Li, Xiaoyan Huang, Yuankun Zhu, Alex Sickler, Matthew R. Lueder, Saksham Phul, Mateusz Koptyra, Phillip B. Storm, Jeffrey B. Ware, Yuanquan Song, Christos Davatzikos, Jessica B. Foster, Sabine Mueller, Michael J. Fisher, Adam C. Resnick, Ali Nabavizadeh

“…Early prediction of treatment responsiveness and suitability for immunotherapy has the potential to improve clinical management and outcomes. Here, we present a radiogenomic analysis of pLGGs, integrating MRI and RNA sequencing data. …”
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Loss of MEF2C function by enhancer mutation leads to neuronal mitochondria dysfunction and motor deficits in mice by Ali Yousefian-Jazi, Suhyun Kim, Jiyeon Chu, Seung-Hye Choi, Phuong Thi Thanh Nguyen, Uiyeol Park, Min-gyeong Kim, Hongik Hwang, Kyungeun Lee, Yeyun Kim, Seung Jae Hyeon, Hyewhon Rhim, Hannah L. Ryu, Grewo Lim, Thor D. Stein, Kayeong Lim, Hoon Ryu, Junghee Lee

“…Behavioral changes of mice were examined through longitudinal study by tail suspension, inverted grid test and automated gait analysis. Results Here, we show that enhancer mutation of MEF2C reduces own gene expression and consequently impairs mitochondrial function in motor neurons. …”
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MicroRNAs Expression Profile in MN1-Altered Astroblastoma by Francesca Gianno, Evelina Miele, Claudia Sabato, Elisabetta Ferretti, Simone Minasi, Francesca Romana Buttarelli, Debora Salerno, Natalia Pediconi, Giuseppe Rubens Pascucci, Francesca Guerrieri, Andrea Ciolfi, Simone Pizzi, Maura Massimino, Veronica Biassoni, Elisabetta Schiavello, Marco Gessi, Sofia Asioli, Angela Mastronuzzi, Antonio d’Amati, Giuseppina Catanzaro, Elisabetta Viscardi, David Capper, Felice Giangaspero, Manila Antonelli

“…MicroRNAs (miRNAs) are important gene expression regulators with strong implications in biological processes. Here, we investigated microRNA expression, regulation, and biological processes correlated to target genes of deregulated miRNAs in MN1-altered astroblastoma. …”
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Molecular-level characterization of supraglacial dissolved and water-extractable organic matter along a hydrological flow path in a Greenland Ice Sheet micro-catchment by E. L. Doting, E. L. Doting, I. T. Stevens, A. M. Kellerman, P. E. Rossel, R. Antony, R. Antony, A. M. McKenna, A. M. McKenna, M. Tranter, L. G. Benning, L. G. Benning, R. G. M. Spencer, J. R. Hawkings, J. R. Hawkings, A. M. Anesio

“…Despite the potential implications of weathering crust dynamics for glacial melting and the export of carbon and nutrients to downstream ecosystems, its role in biogeochemical cycling remains unknown. Here, we use Fourier transform cyclotron resonance mass spectrometry to characterize dissolved organic matter (DOM) along a meltwater flow path in a hydrologically connected micro-catchment on the southern Greenland Ice Sheet. …”
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Factors associated with non-response and nutritional status of non-responders at 6-month post-discharge: a cohort study nested in a MUAC-based nutrition programme for acutely malno... by Maguy Daures, Jérémie Hien, Cécile Cazes, Rodrigue Alitanou, Laure Saillet, Benjamin Séri, Ahmad Ag Mohamed Aly, Oumarou Maidadji, Atté Sanoussi, Aboubacar Mahamadou, Mathias Altmann, Kevin Phelan, Renaud Becquet, Susan Shepherd

“…As efforts to expand MUAC-based programming progress, adapting exit criterion and/or providing additional food supplementation with smaller daily ration for children with risk factors discussed here may help improve programme efficiency without adding to the cost of treatment.…”
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The quasi-continuous exhaust regime in JET by M. Faitsch, M. Dunne, E. Lerche, P. Lomas, I. Balboa, P. Bilkova, P. Bohm, A. Kappatou, D. Kos, B. Labit, S. Menmuir, O. Sauter, S. Silburn, E.R. Solano, H.J. Sun, A. Tookey, E. Viezzer, U. Stroth, JET Contributors, the EUROfusion Tokamak Exploitation Team

“…Using the physics picture developed from the ASDEX Upgrade experimental results, the route to the QCE regime in JET reported here is following closely the approach that was successful in ASDEX Upgrade. …”
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Genome sequences of four Ixodes species expands understanding of tick evolution by Alexandra Cerqueira de Araujo, Benjamin Noel, Anthony Bretaudeau, Karine Labadie, Matéo Boudet, Nachida Tadrent, Benjamin Istace, Salima Kritli, Corinne Cruaud, Robert Olaso, Jean-François Deleuze, Maarten J. Voordouw, Caroline Hervet, Olivier Plantard, Aya Zamoto-Niikura, Thomas Chertemps, Martine Maïbèche, Frédérique Hilliou, Gaëlle Le Goff, Jindřich Chmelař, Vilém Mazák, Mohamed Amine Jmel, Michalis Kotsyfakis, José María Medina, Michael Hackenberg, Ladislav Šimo, Fotini A. Koutroumpa, Patrick Wincker, Petr Kopáček, Jan Perner, Jean-Marc Aury, Claude Rispe

“…Despite advances in tick genomics, high-quality genomes were lacking until recently, particularly in the genus Ixodes, which includes the main vectors of Lyme disease. Results Here, we present the genome sequences of four tick species, derived from a single female individual, with a particular focus on the European species Ixodes ricinus, achieving a chromosome-level assembly. …”
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Integrated proteogenomic characterization of ampullary adenocarcinoma by Qiao Zhang, Xiaomeng Xu, Dongxian Jiang, Yunzhi Wang, Haixing Wang, Jiajun Zhu, Shaoshuai Tang, Ronghua Wang, Shuang Zhao, Kai Li, Jinwen Feng, Hang Xiang, Zhenmei Yao, Ning Xu, Rundong Fang, Wenjia Guo, Yu Liu, Yingyong Hou, Chen Ding

“…Abstract Ampullary adenocarcinoma (AMPAC) is a rare and heterogeneous malignancy. Here we performed a comprehensive proteogenomic analysis of 198 samples from Chinese AMPAC patients and duodenum patients. …”
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The Simcup Morocco: Exploration of the concept, innovative pedagogical relevance, and perspectives by Mohamed El Mouhajir, Yahaya Maijimaa Tourey, Majdouline Obtel, Mohammed Mouhaoui

“…Introduction: The Simcup is a leading national event in the medical field, with clinical competition in terms of simulation. Here, groups of medical students from different faculties in the country participate in patient simulation scenarios, particularly in the field of emergency and disaster medicine. …”
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Drivers of soil biophysical processes along an elevational gradient at Pico de Orizaba volcano, Mexico by Guillermo Angeles, Marycruz Álvarez-Jiménez, Fabien Anthelme, Isabelle Barois, José Luis Chaparro Carrillo, Nereyda Cruz-Maldonado, Thibaud Decaens, Martín de los Santos-Bailón, Stéphane Fourtier, Emmanuel García-Gutiérrez, David García-Segura, Rodrigo Gómez-Aguilar, Antonio Gómez-Anaya, Eduardo Hernández, Daniel Hernández-Cáceres, Leonor Jiménez, Beatriz E. Marín-Castro, Luis Merino-Martín, Marco A. Morales-Martínez, Edwin U. Monfil-León, René A. Palestina, Carlos Pimentel-Reyes, Ricardo Quiroz Reyes, Frédérique Reverchon, Hervé Rey, Catherine Roumet, Christina D. Siebe-Grabach, Katrin Sieron, Víctor Vázques Reyes, Monique Weemstra, Alexia Stokes

“…Vegetation, in turn, influences soil properties through litter input, root growth and the release of root exudates, thereby influencing soil microbial and faunal communities. Here, we report and briefly describe data of soil and underlying bedrock physical and chemical properties, climatic variables, plant community composition and species abundance, soil microbial diversity and macro and mesofaunal abundance and diversity. …”
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